Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 415 of 444
Found at i:120427267 original size:21 final size:21
Alignment explanation
Indices: 120427242--120427291 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
120427232 TTGGGCTTTA
120427242 TTATTATTATTATTAT-ATTTT
1 TTATTATTA-TATTATGATTTT
* *
120427263 TTATTTTTATATTTTGATTTT
1 TTATTATTATATTATGATTTT
*
120427284 TTTTTATT
1 TTATTATT
120427292 TTTTGTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (21 bp):
TTATTATTATATTATGATTTT
Found at i:120427287 original size:18 final size:19
Alignment explanation
Indices: 120427261--120427296 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
120427251 TTATTATATT
120427261 TTTTATTTTTATATTTTGA
1 TTTTATTTTTATATTTTGA
*
120427280 TTTT-TTTTTATTTTTTG
1 TTTTATTTTTATATTTTG
120427297 TATAAGCCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (19 bp):
TTTTATTTTTATATTTTGA
Found at i:120427854 original size:15 final size:15
Alignment explanation
Indices: 120427825--120427869 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
120427815 ATATAAATAG
120427825 AAATA-AAATATAAT
1 AAATAGAAATATAAT
*
120427839 AAATAGAAACATAAT
1 AAATAGAAATATAAT
120427854 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
120427870 ATAGATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 5 0.19
15 10 0.38
16 1 0.04
17 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:120427854 original size:20 final size:20
Alignment explanation
Indices: 120427817--120427854 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
120427807 ATATTAGTAT
*
120427817 ATAAATAGAAATAAAATATA
1 ATAAATAGAAACAAAATATA
*
120427837 ATAAATAGAAACATAATA
1 ATAAATAGAAACAAAATA
120427855 ATAGTAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (20 bp):
ATAAATAGAAACAAAATATA
Found at i:120427889 original size:15 final size:14
Alignment explanation
Indices: 120427817--120427944 Score: 70
Period size: 14 Copynumber: 8.9 Consensus size: 14
120427807 ATATTAGTAT
*
120427817 ATAAATAGAAATA-
1 ATAAATAAAAATAG
120427830 A-AATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
120427845 A-AACATAATAATAG
1 ATAA-ATAAAAATAG
* *
120427859 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
120427874 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
120427889 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
120427903 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
120427918 ATAAATATAAATAG
1 ATAAATAAAAATAG
120427932 A-AACATAAAAATA
1 ATAA-ATAAAAATA
120427945 ATAGGAATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
12 8 0.09
13 9 0.10
14 32 0.35
15 30 0.33
16 5 0.05
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:120427953 original size:29 final size:27
Alignment explanation
Indices: 120427817--120427947 Score: 83
Period size: 29 Copynumber: 4.6 Consensus size: 27
120427807 ATATTAGTAT
*
120427817 ATAAATAGAAATAA-AATATAATAAATAG
1 ATAAATAAAAATAATAA-AT-ATAAATAG
* *
120427845 A-AACATAATAATAGTAGAAATATAAATAG
1 ATAA-ATAAAAATA--ATAAATATAAATAG
120427874 ATAAATAAAAATTAGATAAATA-ATAATAG
1 ATAAATAAAAA-TA-ATAAATATA-AATAG
*
120427903 TATTAGAATAACAA-AATAAATATAAATAG
1 -A-TA-AATAAAAATAATAAATATAAATAG
120427932 A-AACATAAAAATAATA
1 ATAA-ATAAAAATAATA
120427948 GGAATAATAT
Statistics
Matches: 83, Mismatches: 7, Indels: 27
0.71 0.06 0.23
Matches are distributed among these distances:
25 1 0.01
26 7 0.08
27 6 0.07
28 10 0.12
29 38 0.46
30 10 0.12
31 4 0.05
32 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (27 bp):
ATAAATAAAAATAATAAATATAAATAG
Found at i:120432366 original size:10 final size:11
Alignment explanation
Indices: 120432341--120432366 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
120432331 ATGTGTCTCT
120432341 TTTTTTAAATA
1 TTTTTTAAATA
120432352 TTTTTTAAATA
1 TTTTTTAAATA
120432363 TTTT
1 TTTT
120432367 GCTATATCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:120436177 original size:61 final size:62
Alignment explanation
Indices: 120436085--120436213 Score: 233
Period size: 61 Copynumber: 2.1 Consensus size: 62
120436075 ACATAACGAC
*
120436085 AAAATAAGCTATTTTTTCAAGAAAAATAAATTATTAAATGTTATAATATTAACCATAAATAT
1 AAAATAAACTATTTTTTCAAGAAAAATAAATTATTAAATGTTATAATATTAACCATAAATAT
*
120436147 AAAATAAACTA-TTTTTCAAGAAAAATAAATTATTAAATGTTATAATATTTACCATAAATAT
1 AAAATAAACTATTTTTTCAAGAAAAATAAATTATTAAATGTTATAATATTAACCATAAATAT
120436208 AAAATA
1 AAAATA
120436214 TCGTTATATA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
61 55 0.85
62 10 0.15
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (62 bp):
AAAATAAACTATTTTTTCAAGAAAAATAAATTATTAAATGTTATAATATTAACCATAAATAT
Found at i:120439308 original size:53 final size:54
Alignment explanation
Indices: 120439210--120439313 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 54
120439200 TTGGCCGCTA
* * *
120439210 ATTTAAAATTCAAATACATTTTTCTAATCAAATTCAATTTAAAATTATTAAATT
1 ATTTAAAATTAAAATACATTTTTCAAATAAAATTCAATTTAAAATTATTAAATT
* * *
120439264 ATTTATAATTAAAATACCTTTTT-AAATAAAATTCGATTTAAAATTATTAA
1 ATTTAAAATTAAAATACATTTTTCAAATAAAATTCAATTTAAAATTATTAA
120439314 GTGTATAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 24 0.55
54 20 0.45
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (54 bp):
ATTTAAAATTAAAATACATTTTTCAAATAAAATTCAATTTAAAATTATTAAATT
Found at i:120450790 original size:66 final size:66
Alignment explanation
Indices: 120450710--120450839 Score: 224
Period size: 66 Copynumber: 2.0 Consensus size: 66
120450700 TTTGCAAAAG
**
120450710 TATGGTTTTTGGACTAATTTGAACAATTTCATAATTAAATAAGCTAAATTTGATATTATAGATCG
1 TATGGTTTTTGGACTAATTCAAACAATTTCATAATTAAATAAGCTAAATTTGATATTATAGATCG
120450775 A
66 A
* *
120450776 TATGGTTTTTGGACTAATTCAAACAATTTCATAATTAAATGAGCTAAATTTGCTATTATAGATC
1 TATGGTTTTTGGACTAATTCAAACAATTTCATAATTAAATAAGCTAAATTTGATATTATAGATC
120450840 CAGAAAGACG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (66 bp):
TATGGTTTTTGGACTAATTCAAACAATTTCATAATTAAATAAGCTAAATTTGATATTATAGATCG
A
Found at i:120451178 original size:42 final size:40
Alignment explanation
Indices: 120451088--120451221 Score: 101
Period size: 42 Copynumber: 3.2 Consensus size: 40
120451078 ACATTAGGGT
* * * *
120451088 TATGAG-TTTATGTGTAAGACCATATATGGGATATGACATCGT
1 TATGAGATTT-TGTGTAAGACCATGT-T-GGACATGGCATCGA
* *
120451130 TTTGAGATTTTGTGTAAGACTATGTCTAGGACATGGCATCGA
1 TATGAGATTTTGTGTAAGACCATGT-T-GGACATGGCATCGA
* * *
120451172 TATGAGA-ATCGTGTAAGACCATAGTTGGGCTATTGGCATCGA
1 TATGAGATTTTGTGTAAGACCAT-GTTGGAC-A-TGGCATCGA
120451214 TATGAGAT
1 TATGAGAT
120451222 CCCATGTAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
40 3 0.04
41 14 0.19
42 54 0.73
43 3 0.04
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (40 bp):
TATGAGATTTTGTGTAAGACCATGTTGGACATGGCATCGA
Found at i:120451251 original size:42 final size:41
Alignment explanation
Indices: 120451162--120451252 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
120451152 TGTCTAGGAC
* **
120451162 ATGGCATCGATATGAGAATCGTGTAAGACCATAGTTGGGCT
1 ATGGCATCGATATGAGAATCATGTAAGACCATAGTTGGAAT
*
120451203 ATTGGCATCGATATGAG-ATCCCATGTAAGACCATATTTGGAAT
1 A-TGGCATCGATATGAGAAT--CATGTAAGACCATAGTTGGAAT
120451246 ATGGCAT
1 ATGGCAT
120451253 TGGTATGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
41 3 0.07
42 21 0.49
43 19 0.44
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (41 bp):
ATGGCATCGATATGAGAATCATGTAAGACCATAGTTGGAAT
Found at i:120454079 original size:17 final size:17
Alignment explanation
Indices: 120454039--120454072 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
120454029 TATATTAAAA
* *
120454039 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
120454056 TTATAATTATTATGATT
1 TTATAATTATTATGATT
120454073 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:120454482 original size:12 final size:12
Alignment explanation
Indices: 120454465--120454495 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
120454455 GAAGCAGGGG
120454465 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
120454477 AGAAAAAGGGAA
1 AGAAAAAGAGAA
120454489 AGAAAAA
1 AGAAAAA
120454496 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:120455505 original size:39 final size:39
Alignment explanation
Indices: 120455398--120455532 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
120455388 GACCTCGAGT
* * * *
120455398 CGATGAGACACTGGATGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGCTA-ATC
** ** *
120455439 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAAGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAATC
*
120455477 CGATGAGACACTGGGTGTCAACTATTACTTCGAACT-ATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAATC
*
120455516 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
120455533 CCATATTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 20 0.27
39 36 0.48
40 2 0.03
41 14 0.19
42 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAATC
Found at i:120455667 original size:18 final size:18
Alignment explanation
Indices: 120455644--120455684 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
120455634 AAAGAAAAAC
120455644 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
120455662 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
120455680 AGAAA
1 AGAAA
120455685 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:120456192 original size:20 final size:20
Alignment explanation
Indices: 120456169--120456206 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
120456159 GTTATTAAGT
120456169 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
120456189 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
120456207 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:120457776 original size:26 final size:26
Alignment explanation
Indices: 120457739--120457822 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
120457729 TGATACAAAT
* *
120457739 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
120457765 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
120457791 TGATAATGGGTTAAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
120457817 TGATAA
1 TGATAA
120457823 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:120472080 original size:50 final size:50
Alignment explanation
Indices: 120472009--120472109 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
120471999 TTAGTGAAAG
120472009 AAAGAATAGAAGATTGATGGATATGGCCAGATGCTTGATGTTTGAGAAGA
1 AAAGAATAGAAGATTGATGGATATGGCCAGATGCTTGATGTTTGAGAAGA
*
120472059 AAAGAATAGAAGCTTGATGGATATGGCCAGATGCTTGATGTTTGAGAAGA
1 AAAGAATAGAAGATTGATGGATATGGCCAGATGCTTGATGTTTGAGAAGA
120472109 A
1 A
120472110 TTTGCCAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.07, G:0.30, T:0.26
Consensus pattern (50 bp):
AAAGAATAGAAGATTGATGGATATGGCCAGATGCTTGATGTTTGAGAAGA
Found at i:120476215 original size:48 final size:48
Alignment explanation
Indices: 120476153--120476272 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
120476143 ATTACAAACA
120476153 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAAATTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAAATTCATT
*
120476201 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAAATTCATT
120476249 TCAATTATTTACCCTATTAACAAA
1 TCAATTATTTACCCTATTAACAAA
120476273 GCTCGGACTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (48 bp):
TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAAATTCATT
Found at i:120477882 original size:5 final size:5
Alignment explanation
Indices: 120477872--120477899 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
120477862 TATATATATA
120477872 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
120477900 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:120486529 original size:48 final size:47
Alignment explanation
Indices: 120486460--120486550 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
120486450 CCAAAAAATA
* * *
120486460 TTTTTAATAAAAAATTCAAGTTCACTGTATCAACTAAAATAATCCTT
1 TTTTTAATAAAAAATTCAAGTTCAATATATCAACCAAAATAATCCTT
*
120486507 TTTTTAATAAAAAAATTCAAGTTCAATATATCAGCCAAAATAAT
1 TTTTTAAT-AAAAAATTCAAGTTCAATATATCAACCAAAATAAT
120486551 TAATGGATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 8 0.21
48 31 0.79
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (47 bp):
TTTTTAATAAAAAATTCAAGTTCAATATATCAACCAAAATAATCCTT
Found at i:120493558 original size:38 final size:42
Alignment explanation
Indices: 120493487--120493564 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
120493477 AAAATGAAAA
120493487 AATCGTTTTTCGCCTTTTACTTACTCTAGCTAGAAGTTTATTT
1 AATCGTTTTTCGCCTTTTACTTACTCTA-CTAGAAGTTTATTT
*
120493530 AATCGTTTTTCTCC-TTTACTTA-T-T-CTAGAAGTTTA
1 AATCGTTTTTCGCCTTTTACTTACTCTACTAGAAGTTTA
120493565 CATAATACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
38 11 0.32
40 1 0.03
41 1 0.03
42 8 0.24
43 13 0.38
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.50
Consensus pattern (42 bp):
AATCGTTTTTCGCCTTTTACTTACTCTACTAGAAGTTTATTT
Found at i:120493865 original size:12 final size:12
Alignment explanation
Indices: 120493848--120493874 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
120493838 AAATACATTT
120493848 AAATTAATAATA
1 AAATTAATAATA
120493860 AAATTAATAATA
1 AAATTAATAATA
120493872 AAA
1 AAA
120493875 AAAGAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTAATAATA
Found at i:120493976 original size:33 final size:32
Alignment explanation
Indices: 120493939--120494002 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
120493929 GAAATGATGA
120493939 TAAAATAGTAAGAAA-A-CAACAAGAAAATAGCAC
1 TAAAATAGTAA-AAACAGCAA-AA-AAAATAGCAC
120493972 TAAAATAGTAAAAACAGCAAAAAAAATAGCA
1 TAAAATAGTAAAAACAGCAAAAAAAATAGCA
120494003 TTTTTTCTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 12 0.41
33 14 0.48
34 3 0.10
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.12
Consensus pattern (32 bp):
TAAAATAGTAAAAACAGCAAAAAAAATAGCAC
Found at i:120496329 original size:16 final size:16
Alignment explanation
Indices: 120496308--120496393 Score: 109
Period size: 16 Copynumber: 5.4 Consensus size: 16
120496298 TTTGGTTCAT
* **
120496308 TGTAATGGAATAGGGC
1 TGTAATTGAATAGAAC
120496324 TGTAATTGAATAGAAC
1 TGTAATTGAATAGAAC
*
120496340 TGTAATTGAATATAAC
1 TGTAATTGAATAGAAC
*
120496356 TGTAATTGAATATAAC
1 TGTAATTGAATAGAAC
* *
120496372 TGTAATGGAATAGAGC
1 TGTAATTGAATAGAAC
120496388 TGTAAT
1 TGTAAT
120496394 CAGTAATTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 63 1.00
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.33
Consensus pattern (16 bp):
TGTAATTGAATAGAAC
Found at i:120496351 original size:32 final size:32
Alignment explanation
Indices: 120496308--120496393 Score: 127
Period size: 32 Copynumber: 2.7 Consensus size: 32
120496298 TTTGGTTCAT
*
120496308 TGTAATGGAATAGGGCTGTAATTGAATAGAAC
1 TGTAATGGAATAGAGCTGTAATTGAATAGAAC
* * * *
120496340 TGTAATTGAATATAACTGTAATTGAATATAAC
1 TGTAATGGAATAGAGCTGTAATTGAATAGAAC
120496372 TGTAATGGAATAGAGCTGTAAT
1 TGTAATGGAATAGAGCTGTAAT
120496394 CAGTAATTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.33
Consensus pattern (32 bp):
TGTAATGGAATAGAGCTGTAATTGAATAGAAC
Found at i:120496437 original size:46 final size:44
Alignment explanation
Indices: 120496375--120496468 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
120496365 ATATAACTGT
*
120496375 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AG-AATTCAACTGTTTGGTTGAATGG
* ***
120496421 AATGGAATAGAACTGTAATAGGATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGAATTCAACTGTTTGGTTGAATGG
120496465 AATG
1 AATG
120496469 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGAATTCAACTGTTTGGTTGAATGG
Found at i:120496659 original size:17 final size:17
Alignment explanation
Indices: 120496634--120496666 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
120496624 AATTATCATT
120496634 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
*
120496651 AAATTTAATTTAATAA
1 AAATATAATTTAATAA
120496667 CATTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:120497136 original size:43 final size:43
Alignment explanation
Indices: 120497075--120497159 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
120497065 TACAAATACA
*
120497075 TAAGGCAACCAATTTGATGCCTTTTCCAACTTGATACTCAACC
1 TAAGGCAACCAATTTGATGCCTTTTCCAACTTGATACCCAACC
* *
120497118 TAAGGCAACCAATTTGATGTCTTTTCTAACTTGATACCCAAC
1 TAAGGCAACCAATTTGATGCCTTTTCCAACTTGATACCCAAC
120497160 TAATTCCTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (43 bp):
TAAGGCAACCAATTTGATGCCTTTTCCAACTTGATACCCAACC
Found at i:120501386 original size:68 final size:70
Alignment explanation
Indices: 120501255--120501413 Score: 214
Period size: 68 Copynumber: 2.3 Consensus size: 70
120501245 GGATAGAAGC
* *
120501255 ATGAAAAAGAGAGAGATGGTTGGAAGGAAATAGGAAGAAGAATGAAAAAAAGAAGATGATTCAGA
1 ATGAAAAAGAG-GAGAAGGTTGGAAGGAAATAGG-AGAAGAATAAAAAAAAGAAGATGATTCAGA
120501320 CGTGACA
64 CGTGACA
* * *
120501327 ATGAAAAAGAGGAGAAGTTTGGAAGGAAAT-GG-GAAGAATAAAAAAAAGAAGTTGCTTCAGACG
1 ATGAAAAAGAGGAGAAGGTTGGAAGGAAATAGGAGAAGAATAAAAAAAAGAAGATGATTCAGACG
*
120501390 TGAGA
66 TGACA
*
120501395 ACGAAAAAGAGGGAGAAGG
1 ATGAAAAAGA-GGAGAAGG
120501414 GTAAAGTTGA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
68 41 0.53
69 7 0.09
70 2 0.03
71 17 0.22
72 11 0.14
ACGTcount: A:0.50, C:0.04, G:0.32, T:0.13
Consensus pattern (70 bp):
ATGAAAAAGAGGAGAAGGTTGGAAGGAAATAGGAGAAGAATAAAAAAAAGAAGATGATTCAGACG
TGACA
Found at i:120503505 original size:17 final size:18
Alignment explanation
Indices: 120503485--120503518 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
120503475 AAGTGAATTG
120503485 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
120503502 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
120503519 AAACAGAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:120505106 original size:96 final size:97
Alignment explanation
Indices: 120504941--120505127 Score: 295
Period size: 96 Copynumber: 1.9 Consensus size: 97
120504931 ATTTTATTTA
* * ** * *
120504941 TTTATTTTTACTTAGGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCACCCCA
120505006 CCCTGGTTACTCAGCCCAACACATTCCTAATT
66 CCCTGGTTACTCAGCCCAACACATTCCTAATT
* *
120505038 TTTATTTTT-CTTAAGAACATATCAAACCTTTTGACGTGAAGAGAAATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCACCCCA
120505102 CCCTGGTTACTCAGCCCAACACATTC
66 CCCTGGTTACTCAGCCCAACACATTC
120505128 TTAAAAATTA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 73 0.89
97 9 0.11
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCACCCCA
CCCTGGTTACTCAGCCCAACACATTCCTAATT
Found at i:120505874 original size:5 final size:5
Alignment explanation
Indices: 120505846--120505904 Score: 57
Period size: 5 Copynumber: 11.4 Consensus size: 5
120505836 AATAATAAAT
* * *
120505846 AATAA AATAA TAAGAA AA-ATA AATAA AATAC AATAA ACTAA AATAA AATAAA
1 AATAA AATAA -AATAA AATA-A AATAA AATAA AATAA AATAA AATAA AAT-AA
120505898 AATAA AA
1 AATAA AA
120505905 ATTGGGTTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
4 1 0.02
5 34 0.76
6 10 0.22
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:120505881 original size:31 final size:31
Alignment explanation
Indices: 120505832--120505904 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
120505822 TATTAATATC
*
120505832 TAAAAATAATAA-ATAATAAAATAATAAGAAAA
1 TAAAAATAA-AATACAATAAAATAA-AAGAAAA
* * *
120505864 -ATAAATAAAATACAATAAACTAAAATAAAA
1 TAAAAATAAAATACAATAAAATAAAAGAAAA
120505894 TAAAAATAAAA
1 TAAAAATAAAA
120505905 ATTGGGTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
30 8 0.24
31 26 0.76
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (31 bp):
TAAAAATAAAATACAATAAAATAAAAGAAAA
Found at i:120505889 original size:15 final size:14
Alignment explanation
Indices: 120505846--120505897 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 14
120505836 AATAATAAAT
120505846 AATAAAAT-AATAA
1 AATAAAATAAATAA
*
120505859 GA-AAAATAAATAA
1 AATAAAATAAATAA
*
120505872 AATACAATAAACTAA
1 AATAAAATAAA-TAA
120505887 AATAAAATAAA
1 AATAAAATAAA
120505898 AATAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 5 0.16
13 7 0.22
14 7 0.22
15 13 0.41
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:120508676 original size:12 final size:12
Alignment explanation
Indices: 120508658--120508690 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
120508648 TTCCCTGTAA
120508658 AATAGTAAAAAT
1 AATAGTAAAAAT
*
120508670 GATAGTAAAAAT
1 AATAGTAAAAAT
120508682 AATAGTAAA
1 AATAGTAAA
120508691 GGGGAAGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:120508866 original size:17 final size:18
Alignment explanation
Indices: 120508846--120508879 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
120508836 AAGTGCATTG
120508846 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
120508863 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
120508880 AAAAGAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:120510154 original size:19 final size:18
Alignment explanation
Indices: 120510115--120510167 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
120510105 AAAGTTATTG
*
120510115 AATAAAAAAAGATAAAAT
1 AATAAATAAAGATAAAAT
120510133 AATAAATAAA-ATAATAAGT
1 AATAAATAAAGATAA-AA-T
*
120510152 AATTAATAAAGGATAA
1 AATAAATAAA-GATAA
120510168 TTATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 11 0.38
19 10 0.34
21 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.23
Consensus pattern (18 bp):
AATAAATAAAGATAAAAT
Found at i:120511016 original size:23 final size:24
Alignment explanation
Indices: 120510980--120511026 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
120510970 TGAATAATTG
*
120510980 TTGTATGATGAATT-ACAATAGTAT
1 TTGTATGATAAATTGA-AATAGTAT
120511004 TTGT-TGATAAATTGAAATAGTAT
1 TTGTATGATAAATTGAAATAGTAT
120511027 ATGGATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (24 bp):
TTGTATGATAAATTGAAATAGTAT
Found at i:120511606 original size:30 final size:31
Alignment explanation
Indices: 120511582--120511640 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
120511572 GTAAATACTC
* * *
120511582 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAAGTTGAAGGATTAATAATGTAAATATGA
120511612 AAAAGTTGAAGGATTAATAATGTAAATAT
1 AAAAGTTGAAGGATTAATAATGTAAATAT
120511641 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (31 bp):
AAAAGTTGAAGGATTAATAATGTAAATATGA
Found at i:120511883 original size:8 final size:8
Alignment explanation
Indices: 120511866--120511914 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
120511856 AATTAGATAA
120511866 TTATTA-T
1 TTATTATT
120511873 TTATTATT
1 TTATTATT
*
120511881 TTA--ATA
1 TTATTATT
*
120511887 ATA-TATT
1 TTATTATT
120511894 TTATTATT
1 TTATTATT
120511902 TTATTATT
1 TTATTATT
120511910 TTATT
1 TTATT
120511915 TAGTCTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 4 0.11
7 10 0.29
8 21 0.60
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TTATTATT
Found at i:120512735 original size:52 final size:52
Alignment explanation
Indices: 120512628--120512737 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 52
120512618 TGATACAAAT
*
120512628 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATATTCCA
* * * **
120512680 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATATTTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATATTCCA
120512732 TGATAA
1 TGATAA
120512738 GAATTTCATG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATATTCCA
Found at i:120512737 original size:26 final size:26
Alignment explanation
Indices: 120512628--120512725 Score: 169
Period size: 26 Copynumber: 3.8 Consensus size: 26
120512618 TGATACAAAT
120512628 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
120512654 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
120512680 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
120512706 TGATAATGGGTTAGGTAAAT
1 TGATAATAGGTTAGGTAAAT
120512726 ATTTTATGAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:120517598 original size:16 final size:18
Alignment explanation
Indices: 120517571--120517603 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
120517561 CAAAGTTGAG
120517571 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
120517588 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
120517604 TTTAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:120520050 original size:20 final size:20
Alignment explanation
Indices: 120520010--120520050 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
120520000 CTTAATGATT
* *
120520010 AGTTTAATTTAATTAAACTA
1 AGTTTAACTTAATCAAACTA
*
120520030 AGTTTAACTTAATCAAGCTA
1 AGTTTAACTTAATCAAACTA
120520050 A
1 A
120520051 AATAATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (20 bp):
AGTTTAACTTAATCAAACTA
Found at i:120521930 original size:18 final size:18
Alignment explanation
Indices: 120521879--120521931 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
120521869 CCGGCACTCT
* *
120521879 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
* *
120521897 ATAACAATCATTTATTCA
1 ATAACAGTCAATTATTCA
120521915 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
120521932 CGTAGCAGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:120522187 original size:48 final size:48
Alignment explanation
Indices: 120522069--120522187 Score: 159
Period size: 48 Copynumber: 2.5 Consensus size: 48
120522059 CCGTAACTGT
* * *
120522069 AACAGTCTCAGTCATGGTACACAAAGTACCTCATCAGAACGAATCCGG
1 AACAGTCACAGTCATGGTACACTAAGTACCTCATCAGAACGAATCCGA
* * * *
120522117 AACAGTCACAGTCACGGTACACTAAGTACCTTATCGGAATGAATCCGA
1 AACAGTCACAGTCATGGTACACTAAGTACCTCATCAGAACGAATCCGA
120522165 AACAGTCACAGTC-TGGTGACACT
1 AACAGTCACAGTCATGGT-ACACT
120522188 TATAGTGTCT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 3 0.05
48 59 0.95
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (48 bp):
AACAGTCACAGTCATGGTACACTAAGTACCTCATCAGAACGAATCCGA
Found at i:120523196 original size:2 final size:2
Alignment explanation
Indices: 120523189--120523220 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
120523179 TTTGTTTTGT
120523189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
120523221 CTAACTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120525403 original size:25 final size:24
Alignment explanation
Indices: 120525366--120525413 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
120525356 CATTTCACTT
*
120525366 TTTTTAGATTAGATTTTCTCTTTTC
1 TTTTTAGAATAGATTTTCT-TTTTC
120525391 TTTTTAGAATAGATTTTCTTTTT
1 TTTTTAGAATAGATTTTCTTTTT
120525414 GTTGTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTTTAGAATAGATTTTCTTTTTC
Found at i:120533197 original size:24 final size:24
Alignment explanation
Indices: 120533170--120533217 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
120533160 TAGACTTTTA
*
120533170 CTCTTTATGCAATCTAGTCCTTTC
1 CTCTTTATGCAATCTACTCCTTTC
120533194 CTCTTTATGCAATCTACTCCTTTC
1 CTCTTTATGCAATCTACTCCTTTC
120533218 TCCTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.06, T:0.46
Consensus pattern (24 bp):
CTCTTTATGCAATCTACTCCTTTC
Found at i:120533602 original size:44 final size:44
Alignment explanation
Indices: 120533552--120533640 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
120533542 TGTACAGGGA
* **
120533552 TACTTCGACCTTGAGTCGATGAGGTACTA-ATAGTGTCGTACTGT
1 TACTTCGAACTTGAGTCGATGAGACACTATAT-GTGTCGTACTGT
* * *
120533596 TACTTCGAATTTGTGTCGATGAGACACTTTATGTGTCGTACTGT
1 TACTTCGAACTTGAGTCGATGAGACACTATATGTGTCGTACTGT
120533640 T
1 T
120533641 TCTGTTACTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (44 bp):
TACTTCGAACTTGAGTCGATGAGACACTATATGTGTCGTACTGT
Found at i:120542100 original size:2 final size:2
Alignment explanation
Indices: 120542093--120542130 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
120542083 AATCAAGTTC
*
120542093 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
120542131 AATGTCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:120559073 original size:11 final size:11
Alignment explanation
Indices: 120559029--120559097 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
120559019 AAAAATCTTT
*
120559029 TTTTAATATTA
1 TTTTACTATTA
*
120559040 TTTT-TTATTA
1 TTTTACTATTA
**
120559050 TTTT-CTCCCTA
1 TTTTACT-ATTA
*
120559061 TTTTACTGTTA
1 TTTTACTATTA
120559072 TTTTACTATTA
1 TTTTACTATTA
* *
120559083 TATTGCTATTA
1 TTTTACTATTA
120559094 TTTT
1 TTTT
120559098 GTTGTTATTG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
10 10 0.22
11 34 0.74
12 2 0.04
ACGTcount: A:0.22, C:0.10, G:0.03, T:0.65
Consensus pattern (11 bp):
TTTTACTATTA
Found at i:120559184 original size:30 final size:31
Alignment explanation
Indices: 120559135--120559198 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
120559125 ACTTATTTTA
120559135 TTGTTAATTTTTATTATTATTTTA-AAGACAT
1 TTGTTAATTTTTATTATTATTTTAGAA-ACAT
*
120559166 TTGTTAA-TTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTTATTATTATTTTAGAAACAT
120559196 TTG
1 TTG
120559199 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAACAT
Found at i:120559350 original size:12 final size:12
Alignment explanation
Indices: 120559320--120559353 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
120559310 TATATATTTT
120559320 AAAATT-ATATA
1 AAAATTAATATA
120559331 AAAA-TAATATA
1 AAAATTAATATA
120559342 AAAATTAATATA
1 AAAATTAATATA
120559354 GGCGGGCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:120560889 original size:30 final size:30
Alignment explanation
Indices: 120560855--120560911 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
120560845 AAAATGTAAA
*
120560855 TTTTAAATG-ATTAAATTAAAATTTTATTAT
1 TTTTAAA-GAATTAAAATAAAATTTTATTAT
*
120560885 TTTTAAAGAATTAAAATATAATTTTAT
1 TTTTAAAGAATTAAAATAAAATTTTAT
120560912 CTTTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTTAAAGAATTAAAATAAAATTTTATTAT
Found at i:120570169 original size:58 final size:57
Alignment explanation
Indices: 120570066--120570198 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 57
120570056 TTTATATAAT
* ** *
120570066 AATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAGTTATATTTAAC
1 AATAATTATATTAA-AATATGGTTAAATTATATATTATTTTATTAAATTATATTTAAC
* * * *
120570124 AATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTAAT
1 AATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATTATATTTAAC
* *
120570182 AGTAATTTTATTAAAAT
1 AATAATTATATTAAAAT
120570199 TTAATAACAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 18 0.29
58 45 0.71
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (57 bp):
AATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATTTAAC
Found at i:120570374 original size:46 final size:44
Alignment explanation
Indices: 120570290--120570378 Score: 124
Period size: 46 Copynumber: 2.0 Consensus size: 44
120570280 AACATTATTC
*
120570290 CATTCAACCAAACACAAGAATACTATTACAGTTCTATTCCATTT
1 CATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCATTT
***
120570334 CATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTCCATT
1 CATTCAACCAAACACAAGAA-TACT-ATTACAGCTCTATTCCATT
120570379 ACAGCTCTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 17 0.44
45 4 0.10
46 18 0.46
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCATTT
Found at i:120570381 original size:16 final size:16
Alignment explanation
Indices: 120570360--120570430 Score: 117
Period size: 16 Copynumber: 4.4 Consensus size: 16
120570350 TGAATTACTG
120570360 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
120570376 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
120570392 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
120570408 ATTACAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
120570424 ATTACAG
1 ATTACAG
120570431 TGAACCAAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
15 1 0.02
16 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:120570613 original size:73 final size:69
Alignment explanation
Indices: 120570536--120570686 Score: 151
Period size: 71 Copynumber: 2.1 Consensus size: 69
120570526 ATATAAGTTA
* *
120570536 TAAAATTATATTATAGATATTAATATAGATAAGTGTTTAGAATAGTTATAAAAAAATATTATATT
1 TAAAATTATATTATA-AAAATAATATAGAT-A-T-TTTAGAA-AGTTATAAAAAAATATTATATT
120570601 A-TAAATCT
61 ATTAAATCT
* * * * *
120570609 TAAAAAAATTATATTATAAAAATAATTTATATATTTTATAAAGTTATAACAAAATTTTATATTAT
1 T---AAAATTATATTATAAAAATAATATAGATATTTTAGAAAGTTATAAAAAAATATTATATTA-
120570674 TTAAATCT
62 TTAAATCT
120570682 TAAAA
1 TAAAA
120570687 GCATTCTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
70 4 0.06
71 21 0.32
72 6 0.09
73 10 0.15
74 1 0.02
75 10 0.15
76 14 0.21
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (69 bp):
TAAAATTATATTATAAAAATAATATAGATATTTTAGAAAGTTATAAAAAAATATTATATTATTAA
ATCT
Found at i:120572147 original size:14 final size:15
Alignment explanation
Indices: 120572128--120572156 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
120572118 TAAGTTAAAA
120572128 ATAATATA-AATATT
1 ATAATATATAATATT
120572142 ATAATATATAATATT
1 ATAATATATAATATT
120572157 TATGGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATATATAATATT
Found at i:120572460 original size:17 final size:16
Alignment explanation
Indices: 120572440--120572488 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
120572430 TAGGATTTAA
120572440 ATAATATAAATTTTGTT
1 ATAATATAAATTTT-TT
* **
120572457 ATAATTTTTATTTTTT
1 ATAATATAAATTTTTT
120572473 ATAATATAATATTTTT
1 ATAATATAA-ATTTTT
120572489 GCTATAACCA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
ATAATATAAATTTTTT
Found at i:120573026 original size:29 final size:28
Alignment explanation
Indices: 120572964--120573040 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
120572954 ATGACATGTG
120572964 GTAAAAAAATTTTAAA--TAAATAAAAA
1 GTAAAAAAATTTTAAATTTAAATAAAAA
* ** *
120572990 TTTTAAAAATTATTAAATTTTAATAAAAA
1 GTAAAAAAATT-TTAAATTTAAATAAAAA
120573019 GTAAAAAAATATTTTAAATTTA
1 GT-AAAAAA-ATTTTAAATTTA
120573041 TCAAAAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
26 8 0.21
27 5 0.13
29 10 0.26
30 12 0.32
31 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (28 bp):
GTAAAAAAATTTTAAATTTAAATAAAAA
Found at i:120573114 original size:20 final size:21
Alignment explanation
Indices: 120573089--120573130 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
120573079 TTGTGAAATT
120573089 TTATAAAGAT-CAT-AAAAAAA
1 TTATAAA-ATGCATCAAAAAAA
120573109 TTATAAAATGCATCAAAAAAA
1 TTATAAAATGCATCAAAAAAA
120573130 T
1 T
120573131 CATTTAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.10
20 10 0.50
21 8 0.40
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (21 bp):
TTATAAAATGCATCAAAAAAA
Found at i:120573344 original size:19 final size:19
Alignment explanation
Indices: 120573320--120573356 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
120573310 ATATTTTCTT
120573320 TTTACAAATTTTATAATTC
1 TTTACAAATTTTATAATTC
**
120573339 TTTACATTTTTTATAATT
1 TTTACAAATTTTATAATT
120573357 TGCTTATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTACAAATTTTATAATTC
Found at i:120573430 original size:28 final size:28
Alignment explanation
Indices: 120573377--120573430 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
120573367 TTTATAAAAT
*
120573377 TTTATATTTTTTTCTATATTTCTATATA
1 TTTATATTTTTTTCTAAATTTCTATATA
120573405 TTTATAATTTTTTT-TACAATTT-TATA
1 TTTAT-ATTTTTTTCTA-AATTTCTATA
120573431 AAAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTATATTTTTTTCTAAATTTCTATATA
Found at i:120575474 original size:28 final size:28
Alignment explanation
Indices: 120575438--120575531 Score: 89
Period size: 28 Copynumber: 3.4 Consensus size: 28
120575428 TTGCATCAGT
* *
120575438 CATATTATAATGGTCAGATTCCAATGAC
1 CATATTATAACGGTCAAATTCCAATGAC
* * * * * *
120575466 CATGTTATAACAGTTAAATTTCAATAAT
1 CATATTATAACGGTCAAATTCCAATGAC
* *
120575494 CATATTATAACGGTCATATTCCAATGAT
1 CATATTATAACGGTCAAATTCCAATGAC
*
120575522 GATATTATAA
1 CATATTATAA
120575532 GGGTTAAAAC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (28 bp):
CATATTATAACGGTCAAATTCCAATGAC
Found at i:120585515 original size:93 final size:92
Alignment explanation
Indices: 120585357--120585527 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 92
120585347 AGGATATTTG
* * *
120585357 GGCATCCGAACTCGTTAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
120585422 TGAGTCCGAGTTCGAGAGATGTAACTA
66 TGAGTCCGAGTTCGAGAGATGTAACTA
* * *
120585449 GGCATCCGAGCTCGTTGAGTTAAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTT-AGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
120585514 TTGAGTTCGAGTTC
65 TTGAGTCCGAGTTC
120585528 ACTTATGGCC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 15 0.21
93 56 0.79
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GGCATCCGAACTCGTTAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:120585526 original size:46 final size:46
Alignment explanation
Indices: 120585362--120585535 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
120585352 ATTTGGGCAT
* *
120585362 CCGAACTCGTT-AGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*** * * * *
120585407 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
* * *
120585452 ATCCGAGCTCGTTGAGTTAAGTCTGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
120585500 CCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120585536 CCGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
45 13 0.13
46 55 0.54
47 31 0.30
48 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:120588492 original size:15 final size:15
Alignment explanation
Indices: 120588472--120588540 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
120588462 GTATCTTGGG
120588472 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
120588487 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
120588502 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
120588517 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
120588532 TTTCTTTAT
1 TTTCTTTAT
120588541 TCGATTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:120588541 original size:30 final size:30
Alignment explanation
Indices: 120588463--120588542 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
120588453 TATAATATCG
* * *
120588463 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
120588493 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
120588523 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
120588543 GATTTTCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:120590980 original size:46 final size:45
Alignment explanation
Indices: 120590927--120591101 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
120590917 TATTTGGGCA
120590927 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
** * *
120590973 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGA-AGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
120591019 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
120591065 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120591102 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 99 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:120591080 original size:92 final size:92
Alignment explanation
Indices: 120590923--120591093 Score: 306
Period size: 92 Copynumber: 1.9 Consensus size: 92
120590913 AGGATATTTG
* *
120590923 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
120590988 TTGAGTCCGAGTTCGAAGATGTAACTA
66 TTGAGTCCGAGTTCGAAGATGTAACTA
* *
120591015 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
120591080 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
120591094 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAAGATGTAACTA
Found at i:120594748 original size:47 final size:47
Alignment explanation
Indices: 120594623--120594833 Score: 251
Period size: 47 Copynumber: 4.7 Consensus size: 47
120594613 CGGAATAAAA
* * * *
120594623 AACGTGGTGCTAAGTAGATATACCACGATTACACATATTGATACATAT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-T
* *
120594671 AACGTGGCGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* * *
120594718 AACGTGGTGCTAAGTGAATATACCAAGGTTA-A-ACA-TG------T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
*
120594756 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
*
120594803 AACGTGGTGCTAAGTGGATATACCATGGTTA
1 AACGTGGTGCTAAGTGGATATACCACGGTTA
120594834 AACATGTAAC
Statistics
Matches: 137, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
38 29 0.21
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 58 0.42
48 40 0.29
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
Found at i:120594768 original size:38 final size:38
Alignment explanation
Indices: 120594717--120594861 Score: 155
Period size: 38 Copynumber: 3.6 Consensus size: 38
120594707 ATTGATTCAT
*
120594717 TAACGTGGTGCTAAGTGAATATACCAAGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCAAGGTTAAACATG
* * *
120594755 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCAAGGTTA-A-ACA-TG
*
120594796 ATTCATTAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCAAGGTTAAACATG
*
120594840 TAACGTGGTGCGAAGTGGATAT
1 TAACGTGGTGCTAAGTGGATAT
120594862 GTCACGGTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 18
0.78 0.07 0.16
Matches are distributed among these distances:
38 50 0.56
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 30 0.33
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCAAGGTTAAACATG
Found at i:120594813 original size:85 final size:85
Alignment explanation
Indices: 120594665--120594871 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
120594655 ACATATTGAT
* *
120594665 ACATATAACGTGGCGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
120594730 AGTGAATATACCAAGGTTAA
66 AGTGAATATACCAAGGTTAA
120594750 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
* *
120594815 AGTGGATATACCATGGTTAA
66 AGTGAATATACCAAGGTTAA
* *
120594835 ACATGTAACGTGGTGCGAAGTGGATATGTCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
120594872 TACATGTTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGAATATACCAAGGTTAA
Found at i:120594871 original size:38 final size:38
Alignment explanation
Indices: 120594802--120594878 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
120594792 ATTGATTCAT
* *
120594802 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACGTGGTGCGAAGTGGATATACCACGGTTAAACATG
** *
120594840 TAACGTGGTGCGAAGTGGATATGTCACGGTTATACATG
1 TAACGTGGTGCGAAGTGGATATACCACGGTTAAACATG
120594878 T
1 T
120594879 TAATTTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCGAAGTGGATATACCACGGTTAAACATG
Found at i:120600636 original size:14 final size:14
Alignment explanation
Indices: 120600617--120600643 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
120600607 AGTATGAAGG
120600617 AGTAAATTGAGATA
1 AGTAAATTGAGATA
120600631 AGTAAATTGAGAT
1 AGTAAATTGAGAT
120600644 GATCTTTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (14 bp):
AGTAAATTGAGATA
Found at i:120602359 original size:23 final size:23
Alignment explanation
Indices: 120602333--120602409 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 23
120602323 TAATTTAAGT
120602333 TAACCTATCATGATAGTAAATAA
1 TAACCTATCATGATAGTAAATAA
* * * ** *
120602356 TAACATATAATTATCCTTTAATTTAA
1 TAACCTATCATGAT--AGTAA-ATAA
120602382 GTTAACCTATCATGATAGTAAATAA
1 --TAACCTATCATGATAGTAAATAA
120602407 TAA
1 TAA
120602410 TATGTAATTA
Statistics
Matches: 37, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
23 14 0.38
25 6 0.16
26 6 0.16
28 11 0.30
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (23 bp):
TAACCTATCATGATAGTAAATAA
Found at i:120602377 original size:51 final size:51
Alignment explanation
Indices: 120602321--120602424 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
120602311 TTAGATCACT
120602321 TTTAATTTAAGTTAACCTATCATGATAGTAAATAATAACATATAATTATCC
1 TTTAATTTAAGTTAACCTATCATGATAGTAAATAATAACATATAATTATCC
* *
120602372 TTTAATTTAAGTTAACCTATCATGATAGTAAATAATAATATGTAATTATCC
1 TTTAATTTAAGTTAACCTATCATGATAGTAAATAATAACATATAATTATCC
120602423 TT
1 TT
120602425 ATTATATAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (51 bp):
TTTAATTTAAGTTAACCTATCATGATAGTAAATAATAACATATAATTATCC
Found at i:120610007 original size:43 final size:43
Alignment explanation
Indices: 120609946--120610035 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
120609936 AGAGGTAACC
120609946 CTTAGTTCTTTACACATTCTTTAGCTCATTGGGTTTCCATTAT
1 CTTAGTTCTTTACACATTCTTTAGCTCATTGGGTTTCCATTAT
120609989 CTTAGTTCTTTACACATTCTTTAGCTCATTGGGTTTCCATTAT
1 CTTAGTTCTTTACACATTCTTTAGCTCATTGGGTTTCCATTAT
120610032 CTTA
1 CTTA
120610036 ATTCATTAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (43 bp):
CTTAGTTCTTTACACATTCTTTAGCTCATTGGGTTTCCATTAT
Found at i:120612682 original size:36 final size:37
Alignment explanation
Indices: 120612636--120612706 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
120612626 ACTCAAAATA
* *
120612636 ATCATTTTTTGCTTAATTGTTCC-ATCAAAACAAACT
1 ATCATCTTTTGCTTAATTCTTCCGATCAAAACAAACT
* * *
120612672 ATCATCTTTTGTTTAGTTCTTCCGATTAAAACAAA
1 ATCATCTTTTGCTTAATTCTTCCGATCAAAACAAA
120612707 AAATCAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 19 0.66
37 10 0.34
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.42
Consensus pattern (37 bp):
ATCATCTTTTGCTTAATTCTTCCGATCAAAACAAACT
Found at i:120620470 original size:20 final size:20
Alignment explanation
Indices: 120620445--120620483 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
120620435 ACGTAACCCC
*
120620445 CAATAGTTAACGGTTGCAAT
1 CAATAGTTAAAGGTTGCAAT
120620465 CAATAGTTAAAGGTTGCAA
1 CAATAGTTAAAGGTTGCAA
120620484 ATTGGAGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (20 bp):
CAATAGTTAAAGGTTGCAAT
Found at i:120626355 original size:14 final size:14
Alignment explanation
Indices: 120626336--120626365 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
120626326 GTAGATTAGC
*
120626336 TCCCTCTTAAGCAG
1 TCCCTCTTAAGAAG
120626350 TCCCTCTTAAGAAG
1 TCCCTCTTAAGAAG
120626364 TC
1 TC
120626366 TTAAACAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.33, G:0.13, T:0.30
Consensus pattern (14 bp):
TCCCTCTTAAGAAG
Found at i:120630789 original size:37 final size:37
Alignment explanation
Indices: 120630739--120630812 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
120630729 TAAAACAAAC
120630739 CATTCGGTCATAGTGAACATGTTGAGTTGTGAAATAT
1 CATTCGGTCATAGTGAACATGTTGAGTTGTGAAATAT
120630776 CATTCGGTCATAGTGAACATGTTGAGTTGTGAAATAT
1 CATTCGGTCATAGTGAACATGTTGAGTTGTGAAATAT
120630813 TAAACATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (37 bp):
CATTCGGTCATAGTGAACATGTTGAGTTGTGAAATAT
Found at i:120641929 original size:41 final size:43
Alignment explanation
Indices: 120641818--120641945 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 43
120641808 AGCTCGTATA
* * *
120641818 ATGCCAACTTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCAAATATCG
* *
120641861 ATGTC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
* *
120641903 ATGCCAACAT-CCAGACGTGGTCTTACACGATATCACATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCAAATATCG
120641945 A
1 A
120641946 AAATCCTATG
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
40 1 0.01
41 25 0.35
42 12 0.17
43 33 0.46
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:120644653 original size:15 final size:14
Alignment explanation
Indices: 120644635--120644684 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
120644625 TAGATTTATG
120644635 TTTAATTAATCAAAT
1 TTTAATTAAT-AAAT
120644650 TTTAATTAAATAAAT
1 TTTAATT-AATAAAT
*
120644665 TATAATTAATTAAAT
1 TTTAATTAA-TAAAT
*
120644680 GTTAA
1 TTTAA
120644685 CTGAAGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 2 0.07
15 25 0.83
16 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
TTTAATTAATAAAT
Found at i:120648796 original size:45 final size:45
Alignment explanation
Indices: 120648732--120648905 Score: 230
Period size: 45 Copynumber: 3.9 Consensus size: 45
120648722 TATTGTACGG
* *
120648732 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
120648777 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
120648822 TACTATTCAGGCCTTCGAGCCTAGCAAGCTATAATGCCAGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
120648867 TGA-TA-TCGGG-CTTCGAACCTAGCAGGCGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
120648906 GATGAATTCG
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
42 9 0.08
43 16 0.14
44 4 0.03
45 87 0.74
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:120650886 original size:42 final size:42
Alignment explanation
Indices: 120650827--120650911 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
120650817 TTCATGATTC
120650827 ATAGTGATACAGAGAGTTTAAGCAAGACAATTGGTGATGCAT
1 ATAGTGATACAGAGAGTTTAAGCAAGACAATTGGTGATGCAT
*
120650869 ATAGTGATAGAGAGAGTTTAAGCAAGACAATTGGTGATGCAT
1 ATAGTGATACAGAGAGTTTAAGCAAGACAATTGGTGATGCAT
120650911 A
1 A
120650912 CTCTTAGATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (42 bp):
ATAGTGATACAGAGAGTTTAAGCAAGACAATTGGTGATGCAT
Found at i:120654892 original size:60 final size:59
Alignment explanation
Indices: 120654748--120654896 Score: 140
Period size: 60 Copynumber: 2.5 Consensus size: 59
120654738 TTGGTACCTG
* * * * * *
120654748 AACTTGCCTTCAAAGTTCAAATTGGCACCTAAGGTTTTTTCAATCCAATTAGGTACTTG
1 AACTTGACTTTAAGGTTCAAATTGGTACCTAAAGTTTTTTCAATCCAATTAGGTACTTA
* * * **
120654807 AACTTGACTTTAAGATCCAATTTGGTACCTAAAGTTTATTTTGATCCAATTAGGTA-TCTA
1 AACTTGACTTTAAGGTTCAAATTGGTACCTAAAGTTT-TTTCAATCCAATTAGGTACT-TA
* *
120654867 AACTTGGCTTCT-TGGTTCAAATTGGTACCT
1 AACTTGACTT-TAAGGTTCAAATTGGTACCT
120654897 GAACTTGGTT
Statistics
Matches: 71, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
59 30 0.42
60 40 0.56
61 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (59 bp):
AACTTGACTTTAAGGTTCAAATTGGTACCTAAAGTTTTTTCAATCCAATTAGGTACTTA
Found at i:120654913 original size:31 final size:31
Alignment explanation
Indices: 120654867--120654925 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
120654857 TAGGTATCTA
* *
120654867 AACTTGGCTTCTTGGTTCAAATTGGTACCTG
1 AACTTGGCTTCTTGGTCCAAATTAGTACCTG
* *
120654898 AACTTGGTTTTTTGGTCCAAATTAGTAC
1 AACTTGGCTTCTTGGTCCAAATTAGTAC
120654926 TTATGGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (31 bp):
AACTTGGCTTCTTGGTCCAAATTAGTACCTG
Found at i:120656262 original size:17 final size:17
Alignment explanation
Indices: 120656240--120656274 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
120656230 GAACTTAGTC
120656240 TCTCTATTTTTATTTCA
1 TCTCTATTTTTATTTCA
120656257 TCTCTATTTTTATTTCA
1 TCTCTATTTTTATTTCA
120656274 T
1 T
120656275 GAAATTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (17 bp):
TCTCTATTTTTATTTCA
Found at i:120658414 original size:3 final size:3
Alignment explanation
Indices: 120658406--120658522 Score: 62
Period size: 3 Copynumber: 40.0 Consensus size: 3
120658396 AACGAAAACG
* * * * *
120658406 ATA ATA ATA ATA GTA AT- ATAA ATA ATG ATA ATA GTG GTA A-A AT-
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
120658449 ATG ATA ATA CTA ATG ATA ATA ATA ATA ATA GTC AT- ATA AGA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
120658496 ATA TTA GTA ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
120658523 CAAATAATGC
Statistics
Matches: 84, Mismatches: 25, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
2 8 0.10
3 74 0.88
4 2 0.02
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:120658638 original size:2 final size:2
Alignment explanation
Indices: 120658631--120658672 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
120658621 AAGTGTGCTA
120658631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120658673 GCTAGTATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120658913 original size:21 final size:20
Alignment explanation
Indices: 120658887--120658948 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
120658877 GTATAAACAT
*
120658887 AATATGTACATGATATATAAA
1 AATATG-ACATAATATATAAA
*
120658908 AATATG-CATAATATATTAA
1 AATATGACATAATATATAAA
*
120658927 AATATAGACATAATATACAAA
1 AATAT-GACATAATATATAAA
120658948 A
1 A
120658949 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 1 0.03
21 18 0.51
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (20 bp):
AATATGACATAATATATAAA
Found at i:120658923 original size:19 final size:21
Alignment explanation
Indices: 120658894--120658948 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
120658884 CATAATATGT
*
120658894 ACATGATATATAAAAATAT-G
1 ACATAATATATAAAAATATAG
*
120658914 -CATAATATATTAAAATATAG
1 ACATAATATATAAAAATATAG
*
120658934 ACATAATATACAAAA
1 ACATAATATATAAAA
120658949 TAAAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.55
20 1 0.03
21 12 0.41
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.29
Consensus pattern (21 bp):
ACATAATATATAAAAATATAG
Found at i:120659029 original size:15 final size:15
Alignment explanation
Indices: 120658993--120659031 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
120658983 AAAAGAACGA
120658993 ATATACAT-A-ATAT
1 ATATACATAATATAT
120659006 A-ATAC-TAATATAT
1 ATATACATAATATAT
120659019 ATATACATAATAT
1 ATATACATAATAT
120659032 GGAGTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.05
12 5 0.23
13 6 0.27
14 4 0.18
15 6 0.27
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATACATAATATAT
Found at i:120662148 original size:23 final size:23
Alignment explanation
Indices: 120662118--120662164 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
120662108 TATTACTAAC
120662118 TCAGCATTTAGAAAGTCACATAG
1 TCAGCATTTAGAAAGTCACATAG
120662141 TCAGCATTTAGAAAGTCACATAG
1 TCAGCATTTAGAAAGTCACATAG
120662164 T
1 T
120662165 AAATGGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (23 bp):
TCAGCATTTAGAAAGTCACATAG
Found at i:120670098 original size:12 final size:12
Alignment explanation
Indices: 120670081--120670119 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
120670071 CAAAACAAAA
120670081 TAAATAAAAAGG
1 TAAATAAAAAGG
*
120670093 TAAATAAATA-G
1 TAAATAAAAAGG
*
120670104 AAAATAAAAAGG
1 TAAATAAAAAGG
120670116 TAAA
1 TAAA
120670120 AGGGGTGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (12 bp):
TAAATAAAAAGG
Found at i:120680412 original size:41 final size:40
Alignment explanation
Indices: 120680367--120680495 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 40
120680357 TTTATGAGGG
* * * *
120680367 AAACGCCGTAAAAGGTCTAACATTAGCTGCATTTATGATAA
1 AAACGCAGTAAAAGGTCCAGCATTAGC-GCGTTTATGATAA
* * * *
120680408 AAACGCTGCAAAAAGTCCAGCATTAGCGACGTTTATGAGAA
1 AAACGCAGTAAAAGGTCCAGCATTAGCG-CGTTTATGATAA
* *
120680449 AAATGCAGTAAAAGGTCCAGCATTAGCGGCGTTTATGCTAA
1 AAACGCAGTAAAAGGTCCAGCATTAGC-GCGTTTATGATAA
120680490 AAACGC
1 AAACGC
120680496 TGCAAAAAAC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 70 0.97
42 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (40 bp):
AAACGCAGTAAAAGGTCCAGCATTAGCGCGTTTATGATAA
Found at i:120684733 original size:25 final size:25
Alignment explanation
Indices: 120684705--120684753 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
120684695 TTGAAGTATA
*
120684705 ATTTGTATTTGCTATTTTTGGTTGG
1 ATTTGTATTTACTATTTTTGGTTGG
*
120684730 ATTTGTATTTACTGTTTTTGGTTG
1 ATTTGTATTTACTATTTTTGGTTG
120684754 TTACAGGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.04, G:0.22, T:0.61
Consensus pattern (25 bp):
ATTTGTATTTACTATTTTTGGTTGG
Found at i:120686307 original size:20 final size:20
Alignment explanation
Indices: 120686257--120686299 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
120686247 ATTAATTTGT
120686257 TATGAAATTGTCATTAACAC
1 TATGAAATTGTCATTAACAC
*
120686277 TATGAAATTGTCATTAACGC
1 TATGAAATTGTCATTAACAC
120686297 TAT
1 TAT
120686300 CGATTTGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (20 bp):
TATGAAATTGTCATTAACAC
Found at i:120686867 original size:46 final size:47
Alignment explanation
Indices: 120686784--120686902 Score: 115
Period size: 48 Copynumber: 2.5 Consensus size: 47
120686774 AATAAGAGAC
*
120686784 AATTTTTTATTTTATAATTTATTAGAATGTTTATAAAT-TTTTATGA
1 AATTTTTTATTTTATAATTTATTAGAATGTGTATAAATGTTTTATGA
120686830 AATTTTTTACTTTTATAAGTTTATATA-AAT-TGT-TAAATGTTTT-T-A
1 AATTTTTTA-TTTTATAA-TTTAT-TAGAATGTGTATAAATGTTTTATGA
120686875 ATATGTTTTATTATTTTTATAATTTATT
1 A-A--TTTT-TTA-TTTTATAATTTATT
120686903 TGAAAAACCT
Statistics
Matches: 63, Mismatches: 2, Indels: 15
0.79 0.03 0.19
Matches are distributed among these distances:
45 2 0.03
46 16 0.25
47 15 0.24
48 17 0.27
49 13 0.21
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.61
Consensus pattern (47 bp):
AATTTTTTATTTTATAATTTATTAGAATGTGTATAAATGTTTTATGA
Found at i:120687119 original size:161 final size:161
Alignment explanation
Indices: 120686942--120687269 Score: 437
Period size: 161 Copynumber: 2.0 Consensus size: 161
120686932 ATATTTTATT
* * * ****
120686942 TTTTATAAGATTATATAAAATTTTAATATTTTTATAATATTT-TTAC-GTTTTCTTACTATTTTA
1 TTTTATAAGATTATATAAAA-TTTAATATTTTTAT-AT-TTTCTTACTATTTTATTACAAACACA
**
120687005 TTAGA-AAAACAAAAGATTACCTCCTAATTGACCCATCAGTTAATTTTAAAAATTAAAGTGATGA
63 AAAGATAAAACAAAAGATTACCTCCTAATTGACCCATCAGTTAATTTTAAAAATTAAAGTGATGA
*
120687069 AAGACGAAAATTATTAATAGCTATATTGAATTTA
128 AAGACGAAAATTATTAATAGCTACATTGAATTTA
* *
120687103 TTTTATAAGATTATATAAAATTTAATATTTTTATGTTTTCTTACTATTTTATTAGAAACACAAAA
1 TTTTATAAGATTATATAAAATTTAATATTTTTATATTTTCTTACTATTTTATTACAAACACAAAA
* *** * *
120687168 GATTAAGTTAGAGATTACCTCCTAATTGACCCATCAGTTGATTTTAAAAATTAAAGTGATGAAAG
66 GATAAAACAAAAGATTACCTCCTAATTGACCCATCAGTTAATTTTAAAAATTAAAGTGATGAAAG
*
120687233 ACGAAAATTATTAATAGCTACATTGAATTTT
131 ACGAAAATTATTAATAGCTACATTGAATTTA
120687264 TTTTAT
1 TTTTAT
120687270 TAACAATAAG
Statistics
Matches: 145, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
158 3 0.02
159 5 0.03
160 26 0.18
161 111 0.77
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (161 bp):
TTTTATAAGATTATATAAAATTTAATATTTTTATATTTTCTTACTATTTTATTACAAACACAAAA
GATAAAACAAAAGATTACCTCCTAATTGACCCATCAGTTAATTTTAAAAATTAAAGTGATGAAAG
ACGAAAATTATTAATAGCTACATTGAATTTA
Found at i:120687166 original size:149 final size:152
Alignment explanation
Indices: 120686976--120687269 Score: 441
Period size: 161 Copynumber: 1.9 Consensus size: 152
120686966 AATATTTTTA
120686976 TAATATTTTTACGTTTTCTTACTATTTTATTAGAAAAAC-AA-A-AGATTACCTCCTAATTGACC
1 TAATATTTTTACGTTTTCTTACTATTTTATTAGAAAAACAAATAGAGATTACCTCCTAATTGACC
*
120687038 CATCAGTTAATTTTAAAAATTAAAGTGATGAAAGACGAAAATTATTAATAGCTATATTGAATTTA
66 CATCAGTTAATTTTAAAAATTAAAGTGATGAAAGACGAAAATTATTAATAGCTACATTGAATTTA
120687103 TTTTATAAGATTATATAAAATT
131 TTTTATAAGATTATATAAAATT
* *
120687125 TAATATTTTTATGTTTTCTTACTATTTTATTAGAAACACAAAAGATTAAGTTAGAGATTACCTCC
1 TAATATTTTTACGTTTTCTTACTATTTTATTAG----A-AAAACA--AA--TAGAGATTACCTCC
*
120687190 TAATTGACCCATCAGTTGATTTTAAAAATTAAAGTGATGAAAGACGAAAATTATTAATAGCTACA
57 TAATTGACCCATCAGTTAATTTTAAAAATTAAAGTGATGAAAGACGAAAATTATTAATAGCTACA
*
120687255 TTGAATTTTTTTTAT
122 TTGAATTTATTTTAT
120687270 TAACAATAAG
Statistics
Matches: 128, Mismatches: 5, Indels: 12
0.88 0.03 0.08
Matches are distributed among these distances:
149 32 0.25
153 1 0.01
154 4 0.03
157 2 0.02
160 1 0.01
161 88 0.69
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (152 bp):
TAATATTTTTACGTTTTCTTACTATTTTATTAGAAAAACAAATAGAGATTACCTCCTAATTGACC
CATCAGTTAATTTTAAAAATTAAAGTGATGAAAGACGAAAATTATTAATAGCTACATTGAATTTA
TTTTATAAGATTATATAAAATT
Found at i:120693686 original size:24 final size:25
Alignment explanation
Indices: 120693636--120693686 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
120693626 GTGCTCTAAT
*
120693636 AAAAAAATTATATAGTTAATTGAGAC
1 AAAAAAATTATATACTTAATT-AGAC
*
120693662 AAAAAACTTATATACTTAATT-GAC
1 AAAAAAATTATATACTTAATTAGAC
120693686 A
1 A
120693687 CTGAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
26 19 0.83
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (25 bp):
AAAAAAATTATATACTTAATTAGAC
Found at i:120693819 original size:20 final size:20
Alignment explanation
Indices: 120693794--120693831 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
120693784 TAGATTGGGA
120693794 TAAAATAAA-ACTTAAAATAC
1 TAAAATAAACA-TTAAAATAC
120693814 TAAAATAAACATTAAAAT
1 TAAAATAAACATTAAAAT
120693832 TAAATACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAAACATTAAAATAC
Found at i:120712628 original size:56 final size:56
Alignment explanation
Indices: 120712542--120712654 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
120712532 TCGTTTGGTA
*
120712542 TGTATTATTCTTTGAGCTCCTGAATTCAAATATAACTGTGATTCCTTGATTACATG
1 TGTATTATTCTTTGAGCTCCTGAATCCAAATATAACTGTGATTCCTTGATTACATG
* *
120712598 TGTATTATTCTTTGAGCTTCTGAATCCAAATATAACTGTGATTCCTTGATTTCATG
1 TGTATTATTCTTTGAGCTCCTGAATCCAAATATAACTGTGATTCCTTGATTACATG
120712654 T
1 T
120712655 ATAAACTGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (56 bp):
TGTATTATTCTTTGAGCTCCTGAATCCAAATATAACTGTGATTCCTTGATTACATG
Found at i:120717922 original size:18 final size:18
Alignment explanation
Indices: 120717901--120717999 Score: 94
Period size: 18 Copynumber: 5.5 Consensus size: 18
120717891 TAATAATCAG
* *
120717901 TTATTCAGTAACGGTCGT
1 TTATTCAGTAACAGTCGA
* * *
120717919 TTATTCATTATCAGTCAA
1 TTATTCAGTAACAGTCGA
** *
120717937 TTATTCAGTAGTAGT-TA
1 TTATTCAGTAACAGTCGA
120717954 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCGA
120717972 TTGATTCAGTAACAGTCGA
1 TT-ATTCAGTAACAGTCGA
120717991 TTATTCAGT
1 TTATTCAGT
120718000 GGCAGTTAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
17 3 0.05
18 60 0.91
19 3 0.05
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (18 bp):
TTATTCAGTAACAGTCGA
Found at i:120718005 original size:18 final size:17
Alignment explanation
Indices: 120717869--120717999 Score: 93
Period size: 18 Copynumber: 7.4 Consensus size: 17
120717859 ATCTTTATTG
* *
120717869 TTCAGTATCAGTCAGTCA
1 TTCAGTAACAGTCA-TTA
* *
120717887 -TCAGTAATAATCAGTTA
1 TTCAGTAACAGTCA-TTA
* *
120717904 TTCAGTAACGGTCGTTTA
1 TTCAGTAACAGTC-ATTA
* *
120717922 TTCATTATCAGTCAATTA
1 TTCAGTAACAGTC-ATTA
** *
120717940 TTCAGTAGTAGTTAGTTA
1 TTCAGTAACAGTCA-TTA
120717958 TTCAGTAACAGTCATTGA
1 TTCAGTAACAGTCATT-A
120717976 TTCAGTAACAGTCGATTA
1 TTCAGTAACAGTC-ATTA
120717994 TTCAGT
1 TTCAGT
120718000 GGCAGTTAAT
Statistics
Matches: 88, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
17 16 0.18
18 69 0.78
19 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (17 bp):
TTCAGTAACAGTCATTA
Found at i:120718007 original size:54 final size:54
Alignment explanation
Indices: 120717899--120718007 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
120717889 AGTAATAATC
* * * * * *
120717899 AGTTATTCAGTAACGGTCGTTTATTCATTATCAGTCAATTATTCAGTAGTAGTT
1 AGTTATTCAGTAACAGTCATTGATTCAGTAACAGTCAATTATTCAGTAGCAGTT
* *
120717953 AGTTATTCAGTAACAGTCATTGATTCAGTAACAGTCGATTATTCAGTGGCAGTT
1 AGTTATTCAGTAACAGTCATTGATTCAGTAACAGTCAATTATTCAGTAGCAGTT
120718007 A
1 A
120718008 ATTTTTAGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (54 bp):
AGTTATTCAGTAACAGTCATTGATTCAGTAACAGTCAATTATTCAGTAGCAGTT
Found at i:120723208 original size:26 final size:26
Alignment explanation
Indices: 120723159--120723220 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
120723149 TTAAGTTCAA
*
120723159 TGAGCTTCCTGTTTAAAGACTCTTCG
1 TGAGCTTCCTGTTAAAAGACTCTTCG
* *
120723185 TGAGCTTCCTGATTAAAAG-TTCTTTG
1 TGAGCTTCCTG-TTAAAAGACTCTTCG
*
120723211 TGAACTTCCT
1 TGAGCTTCCT
120723221 ATATAAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (26 bp):
TGAGCTTCCTGTTAAAAGACTCTTCG
Found at i:120723682 original size:32 final size:32
Alignment explanation
Indices: 120723646--120723709 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
120723636 GATTCAGCGG
120723646 GAAAAATTCTGATATGAAACAATATGAGTACA
1 GAAAAATTCTGATATGAAACAATATGAGTACA
120723678 GAAAAATTCTGATATGAAACAATATGAGTACA
1 GAAAAATTCTGATATGAAACAATATGAGTACA
120723710 AAATGAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (32 bp):
GAAAAATTCTGATATGAAACAATATGAGTACA
Found at i:120725678 original size:25 final size:25
Alignment explanation
Indices: 120725649--120725702 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
120725639 TTAATCCTTA
*
120725649 TTAAATCTAATCCTAAGTTCTAAAC
1 TTAAATCTAATCCGAAGTTCTAAAC
* *
120725674 TTAAATCTAATTCGAAGTTTTAAAC
1 TTAAATCTAATCCGAAGTTCTAAAC
120725699 TTAA
1 TTAA
120725703 GTTCTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.39
Consensus pattern (25 bp):
TTAAATCTAATCCGAAGTTCTAAAC
Found at i:120727104 original size:20 final size:20
Alignment explanation
Indices: 120727079--120727123 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
120727069 ACTCACAAGA
*
120727079 TGTATGGATAGAAA-TGGACT
1 TGTATGGATA-AAAGTGAACT
120727099 TGTATGGATAAAAGTGAACT
1 TGTATGGATAAAAGTGAACT
120727119 TGTAT
1 TGTAT
120727124 CAATATAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (20 bp):
TGTATGGATAAAAGTGAACT
Found at i:120730121 original size:29 final size:30
Alignment explanation
Indices: 120730074--120730154 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
120730064 AGAACGGGAT
*
120730074 TAAATCAAAATTTCATGTATAAAATTAAACA
1 TAAATC-AAAGTTCATGTATAAAATTAAACA
* *
120730105 -AAATCAAAGTTCATGTATACAATTACACA
1 TAAATCAAAGTTCATGTATAAAATTAAACA
* *
120730134 TTAAACCATAGTTCATGTATA
1 -TAAATCAAAGTTCATGTATA
120730155 GTTTTGGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 21 0.49
30 5 0.12
31 17 0.40
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (30 bp):
TAAATCAAAGTTCATGTATAAAATTAAACA
Found at i:120734769 original size:10 final size:10
Alignment explanation
Indices: 120734734--120734772 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
120734724 TTAGGGTTTA
*
120734734 ATATTTATTT
1 ATATTTAATT
*
120734744 ATAATTAATT
1 ATATTTAATT
120734754 ATTATTTAATT
1 A-TATTTAATT
120734765 ATATTTAA
1 ATATTTAA
120734773 ATAAAGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTAATT
Found at i:120735116 original size:2 final size:2
Alignment explanation
Indices: 120735109--120735138 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
120735099 GTAAAATCTA
120735109 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120735139 TAAATGAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120744161 original size:2 final size:2
Alignment explanation
Indices: 120744156--120744204 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
120744146 CCCTTTAAGC
120744156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120744198 AT AT AT A
1 AT AT AT A
120744205 CACGAGTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.